Method and System for Microbiome-Derived Diagnostics and Therapeutics Infectious Disease and Other Health Conditions Associated with Antibiotic Usage

2. The method of claim 1, wherein the determining comprises preparing DNA from the sample and performing nucleotide sequencing of the DNA.

4. The method of claim 3, wherein the deep sequencing is random deep sequencing.

5. The method of claim 3, wherein the deep sequencing comprises deep sequencing of 16S rRNA coding sequences.

7. The method of claim 1, wherein the sample is a fecal, blood, saliva, cheek swab, urine or bodily fluid from the individual human.

9. The method of claim 8, wherein the treating comprises administering a dose of one of more of the selected bacterial taxa to the individual human for which the individual human is deficient.